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1,000 results • Page
4 of 20
Sort: Rank
Rank
Views
Votes
Replies
0
votes
2
replies
321
views
Help with understanding the identifier mapping tables in the backend of HUMAnN
metagenomics
metacyc
enzyme
biobakery
humann
15 days ago by
O.rka
▴ 710
0
votes
6
replies
557
views
PacBio adapters in transcriptome assembly from short read data?
adapter
transcriptome
sequencing
pacbio
vecscreen
13 days ago by
Dunois
★ 2.5k
4
votes
7
replies
561
views
DESeq2 Multifactor Design
RNA-seq
DESeq2
updated 14 days ago by
Ram
43k • written 15 days ago by
AHerik
▴ 20
0
votes
0
replies
190
views
Using Delly/Pindel/breakdancer for Identifying Transgene Insertion Sites in Mouse Genome
breakdancer
insertion
Pindel
variation
Delly
updated 15 days ago by
GenoMax
141k • written 15 days ago by
zec018
• 0
0
votes
0
replies
194
views
SeuratDisk: including "counts" dataset in conversion to AnnData
Seurat
SeuratDisk
AnnData
updated 16 days ago by
Ram
43k • written 16 days ago by
roussine
▴ 10
0
votes
0
replies
182
views
I am getting more annotation hits from HOMER than I have actual peaks. Is that normal?
ATAC-seq
HOMER
16 days ago by
Ronin
• 0
4
votes
13
replies
877
views
RNAseq of primary tumor and metastases in two different organ
metastases
RNA-seq
DEG
R
updated 11 days ago by
BioinfGuru
★ 1.7k • written 17 days ago by
matteo.levorato
• 0
2
votes
1
reply
250
views
VEP annotation --per_gene allele choice
VEP
updated 16 days ago by
Ram
43k • written 16 days ago by
atariw
▴ 10
0
votes
2
replies
286
views
Are GeneExpression Subtype annotations removed from TCGA-GBM?
tcga-gbm
subtyping
tcga
updated 15 days ago by
Zhenyu Zhang
★ 1.2k • written 16 days ago by
Apollonia
• 0
1
vote
1
reply
249
views
RNA seq normalization and gene gene correlation
rna-seq
pearson-correlation
vst
updated 16 days ago by
Ram
43k • written 16 days ago by
Fish
• 0
0
votes
0
replies
187
views
Snakemake fails to find conda in PBS
snakemake
16 days ago by
yixinzeng
• 0
0
votes
0
replies
189
views
KaryoPlot: Gene coverage over centromeric regions
Gene
coverage
Centromere
Bedtools
16 days ago by
Mary
• 0
0
votes
0
replies
182
views
Protein stability analysis
mutation
analysis
16 days ago by
marco.barr
▴ 80
1
vote
4
replies
398
views
what is the normal range of htseq-count output for homo sapiens RNA-Seq
Transcriptomics
htseq-count
RNA-Seq
NGS
hisat2
updated 15 days ago by
BioinfGuru
★ 1.7k • written 16 days ago by
Morteza
• 0
3
votes
1
reply
268
views
how to change the gene header names in a fasta file?
fasta
bioawk
awk
seqkit
updated 16 days ago by
Ram
43k • written 16 days ago by
rj.rezwan
• 0
0
votes
0
replies
171
views
Multiple Spike-Ins
MeRIP
Spike-In
17 days ago by
Adam
▴ 30
0
votes
0
replies
161
views
Tools for Sequence Consensus
Consensus-Sequence
bacteria
updated 16 days ago by
Ram
43k • written 17 days ago by
Reno
• 0
2
votes
2
replies
276
views
DepMap: siRNA and CRSIPR discrepancy
DepMap
updated 16 days ago by
ATpoint
82k • written 17 days ago by
Shicheng Guo
★ 9.4k
1
vote
0
replies
159
views
phasing tumor long-reads
nanopore
ONT
haplotag
phasing
tumor
17 days ago by
eesiribloom
▴ 80
0
votes
3
replies
325
views
10x GEX and ADT data analysis in Seurat
Seurat
scRNA-seq
ADT
Cite-seq
GEX
updated 15 days ago by
ATpoint
82k • written 17 days ago by
gdfsnkfns
• 0
0
votes
4
replies
325
views
Questions about transfering wgs file to reference genome file
fasta
cram
genome
17 days ago by
me
• 0
0
votes
2
replies
268
views
WGCNA
PCA
WGCNA
EIGENGENE
16 days ago by
rajasekargutha
▴ 60
0
votes
3
replies
270
views
BLASTP web- <20aa peptides- interpreting results/ minimum E value?
blast
peptide
blastp
alignment
updated 16 days ago by
GenoMax
141k • written 17 days ago by
neish
• 0
1
vote
0
replies
158
views
DESeq2 comparing timepoints within treatment and account for background control change
RNAseq
DEG
DESeq2
updated 17 days ago by
Ram
43k • written 17 days ago by
ian.will
▴ 30
0
votes
0
replies
107
views
Surrogate variable analysis for paired RNA seq experiment
sva
rnaseq
ruvseq
17 days ago by
nhaus
▴ 310
1
vote
3
replies
284
views
True variants selection
vcf
bcftools
updated 16 days ago by
dthorbur
★ 1.9k • written 17 days ago by
maevalefeuvre
• 0
0
votes
1
reply
166
views
How to reveal real AF of variant if duplicates can't be removed (such as in amplicon-seq)
allele-frequency
amplicon-seq
updated 17 days ago by
Ram
43k • written 17 days ago by
CY
▴ 750
0
votes
0
replies
110
views
Creating a BSgenome data package from a NCBI assembly - Virus
Virus
BSgenomeForge
BSgenome
R
17 days ago by
JirMan
▴ 20
1
vote
1
reply
176
views
Failed to download data from EBI with ascp
EBI
aspera
updated 17 days ago by
GenoMax
141k • written 17 days ago by
biock
▴ 60
0
votes
0
replies
399
views
BETA whether on the same scale when performing rank-based inverse normal transformation on the same type of phenotype data for two cohorts separately…
normal
inverse
transformation
17 days ago by
Isaac
• 0
0
votes
0
replies
109
views
Combining VG graphs
vg
graphs
combine
17 days ago by
AshleeThomson
▴ 80
0
votes
0
replies
115
views
Installing SALSA and HIRise scafolding software
scafolding
SALSA
genome-assembly
HIRise
updated 17 days ago by
Ram
43k • written 17 days ago by
Lissa Cruz Saavedra
• 0
0
votes
1
reply
186
views
Extract Di-nucleotide/Tri-Nucleotide substitution frequencies from MSA/VCF file
MSA
substitution
VCFstats
Evolution
VCF
updated 17 days ago by
Pierre Lindenbaum
161k • written 17 days ago by
Saran
▴ 50
0
votes
2
replies
275
views
Abundance Calculation in MetaPhlAn 3: Methodology, TPM or RPKM, and the Treatment of Unclassified Reads
MetaPhlAn
Normalization
RPKM
TPM
15 days ago by
ramin.k2013
• 0
0
votes
0
replies
163
views
Normalization in Metagenomics Sequencing By Total Number of Reads: Pre- or Post-Filtering and the Role of Unclassified Reads
Normalization
Metagenomics
updated 17 days ago by
Ram
43k • written 17 days ago by
ramin.k2013
• 0
0
votes
1
reply
176
views
Help with generating annotation database for dog genome to use in ANNOVAR for variant annotation of dog tumor sequences
ANNOVAR
updated 18 days ago by
Pierre Lindenbaum
161k • written 18 days ago by
sainavyav22
• 0
0
votes
9
replies
594
views
99.9999% of Q30 bases is normal?
RNA-seq
fastp
updated 16 days ago by
LauferVA
4.2k • written 18 days ago by
Aki
▴ 20
0
votes
0
replies
98
views
Issue while using circle_dat function from GOplot in R
GOplot
R
18 days ago by
ckelly96
• 0
0
votes
2
replies
201
views
Can't figure out plink --sample-diff
plink
18 days ago by
curious
▴ 750
0
votes
1
reply
154
views
Geneious Prime (Consense Sequence)
Consense
Sequence
updated 18 days ago by
GenoMax
141k • written 18 days ago by
Reno
• 0
1
vote
2
replies
226
views
convert a seurat object to expressionset
Seurat
17 days ago by
Bine
▴ 60
2
votes
4
replies
404
views
Per Base Sequence Content - continuous raise of G%
fastqc
updated 18 days ago by
GenoMax
141k • written 19 days ago by
pl.terzian
• 0
0
votes
0
replies
122
views
Inferring cell identity/genotype in single cells with missing information
cell
seurat
single
score
18 days ago by
txema.heredia
▴ 110
0
votes
0
replies
104
views
cibersortx colnames
gema122
18 days ago by
gem1
• 0
0
votes
2
replies
224
views
How to detect and visualize ORFs in bacterial genome?
statistics
visualization
ORFs
genome
16 days ago by
marongiu.luigi
▴ 710
0
votes
8
replies
5.3k
views
8 follow
cellranger mkref failed
next-gen-sequencing
software-error
RNA-seq
updated 18 days ago by
EricYang
• 0 • written 4.7 years ago by
Dan
▴ 180
0
votes
0
replies
104
views
Confused about the results of a function in dada2 pipeline sample inference step
Microbiome
R
dada2
18 days ago by
Mohamed Samir
▴ 20
1
vote
4
replies
816
views
I want to calculate if the sample has whole genome duplication event or not?
sequencing
wgs
18 days ago by
Hyper_Odin
▴ 310
2
votes
4
replies
301
views
Addmetadata to seurat obj
seurat
18 days ago by
synat.keam
▴ 100
0
votes
0
replies
102
views
Methylation array analysis using dmpFinder
epic
methylation
normalization
dmp
mset
18 days ago by
Roy
▴ 10
1,000 results • Page
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Recent Replies
Comment: What does it mean single base resolution in sequencing?
by
dsull
★ 5.9k
Great comprehensive explanation and overview of the technologies -- with regards to sequencing assays, the one thing I'd add is SNV identif…
Answer: What does it mean single base resolution in sequencing?
by
dsull
★ 5.9k
I think that term means slightly different things in different contexts. For example, it's useful to profile mRNA modifications (e.g. m6a) …
Answer: Cannot process all the reads in a fast5 file?
by
chujie
• 0
Hi, I met the same problem, have you found the solution?
Answer: What does it mean single base resolution in sequencing?
by
LauferVA
4.2k
Hi @fe3e6f65 , In a single sentence, the answer to your question can be summarized as, "*the resolution of a genomic technology refers to …
Comment: PCA plot
by
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4.2k
Without more context, we cannot interpret this PCA plot. There are many possibilities. In addition, this question is basic enough that it w…
Comment: NGS forensics: how to know if data is fabricated
by
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22k
i have the name ready: out**liar**
Comment: What does it mean single base resolution in sequencing?
by
GenoMax
141k
Sequencing by hybridization (https://en.wikipedia.org/wiki/Sequencing_by_hybridization ) is likely not giving you single base resolution. B…
Comment: Fetch table from clinvar database according to a list of rsid
by
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▴ 20
Hii... i have updated the script in python..But, still getting no data found. Actually the data is there, i have print the parsed html file…
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ATpoint
82k
https://bioconductor.org/books/release/OSCA.multisample/using-corrected-values.html
Comment: Downloading full alignments from Pfam
by
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141k
Not as convenient but the entire set of full alignments can be downloaded here: https://ftp.ebi.ac.uk/pub/databases/Pfam/current_release/Pf…
Comment: How many reads for WGS Sequencing?
by
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141k
> What does clipped Fastq mean? Probably means that NCBI has already scanned and trimmed adapter sequencers. > both forward and revers…
Comment: How many reads for WGS Sequencing?
by
GenoMax
141k
You can use the default `adapters.fa` file included in the `resources` folder of [**BBMap suite**][1] (program to use is `bbduk.sh`) or a p…
Comment: How many reads for WGS Sequencing?
by
GenoMax
141k
Only way to find out is to try. It may work but if it is not going to then you will find that out quick (process would likely crash because…
Comment: How many reads for WGS Sequencing?
by
Ruqaiya
• 0
Also, there is no mention of adapter sequence so which adapter sequence should i use to remove it from some other reads?
Comment: How many reads for WGS Sequencing?
by
Ruqaiya
• 0
Also, Do you think i can reproduce at least most part of the data from the paper just on my laptop? It has 4 logical processors (Intel(R) C…
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